Protein Dossier — NID1 (Nidogen-1)
MR feasibility tier: A — Published pQTL-MR estimates exist for this protein (retrieved below - not computed here).
1. Published MR estimates (retrieved, not computed)
| Outcome |
beta |
se |
p |
method |
nSNP |
cis/trans |
coloc |
| Non-cancer illness code self-reported: high cholesterol |
0.0494 |
0.0191 |
0.00959 |
Wald ratio |
1 |
trans |
NA |
| Internalizing problems |
-0.15 |
0.0695 |
0.0306 |
Wald ratio |
1 |
trans |
NA |
| Cigarettes smoked per day |
0.537 |
0.259 |
0.0379 |
Wald ratio |
1 |
trans |
NA |
| Diagnoses - main ICD10: J33 Nasal polyp |
0.185 |
0.0902 |
0.04 |
Wald ratio |
1 |
trans |
NA |
| Hippocampus volume |
29.4 |
14.4 |
0.0418 |
Wald ratio |
1 |
trans |
NA |
| Diagnoses - main ICD10: D12 Benign neoplasm of colon rectum anus and anal canal |
0.114 |
0.056 |
0.0421 |
Wald ratio |
1 |
trans |
NA |
| Creatinine (enzymatic) in urine |
0.0144 |
0.00709 |
0.0427 |
Wald ratio |
1 |
trans |
NA |
| Diagnoses - main ICD10: H25 Senile cataract |
-0.212 |
0.106 |
0.0449 |
Wald ratio |
1 |
trans |
NA |
| Non-cancer illness code self-reported: hypopituitarism |
0.512 |
0.261 |
0.0496 |
Wald ratio |
1 |
trans |
NA |
| Non-cancer illness code self-reported: polio or poliomyelitis |
0.392 |
0.201 |
0.051 |
Wald ratio |
1 |
trans |
NA |
| Non-cancer illness code self-reported: migraine |
-0.0869 |
0.0468 |
0.0633 |
Wald ratio |
1 |
trans |
NA |
| HDL cholesterol |
0.0267 |
0.0149 |
0.0731 |
Wald ratio |
1 |
trans |
NA |
| …and 94 more outcomes (see JSON) |
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2. pQTL instrument availability (Tier-B probe)
| Dataset |
Trait |
Author |
Year |
prot-c-3213_65_2 |
Nidogen |
Suhre K |
2019 |
3. GWAS Catalog results — traits with signal at this locus
53 association rows across 34 traits (42 genome-wide significant rows). Associations are loci, not causal claims; the mapped gene at a locus is not necessarily the effector gene.
| Trait |
best p |
lead SNP |
n assoc |
study |
MR status |
| Circulating NID1 levels |
6e-137 |
rs76183323 |
6 |
GCST90860448 |
no MR -> candidate analysis |
| NID1 protein levels |
5e-134 |
rs76183323 |
3 |
GCST90470047 |
no MR -> candidate analysis |
| ADGRF5 protein levels |
3e-125 |
rs76183323 |
5 |
GCST90468239 |
no MR -> candidate analysis |
| NID1/SORT1 protein level ratio |
5e-88 |
rs6665414 |
1 |
GCST90315542 |
no MR -> candidate analysis |
| LAMA4/NID1 protein level ratio |
2e-81 |
rs12409606 |
1 |
GCST90315272 |
no MR -> candidate analysis |
| CD46/NID1 protein level ratio |
1e-76 |
rs12409606 |
1 |
GCST90313833 |
no MR -> candidate analysis |
| APP/NID1 protein level ratio |
4e-66 |
rs6665414 |
1 |
GCST90313326 |
no MR -> candidate analysis |
| Nidogen-1 levels |
3e-47 |
rs76183323 |
3 |
GCST90248678 |
no MR -> candidate analysis |
| Cell growth regulator with EF hand domain protein 1 levels |
3e-41 |
rs76183323 |
2 |
GCST90247002 |
no MR -> candidate analysis |
| Serum levels of protein NID1 |
4e-25 |
rs12409606 |
1 |
GCST90088274 |
no MR -> candidate analysis |
| Cerebrospinal fluid protein NID1 levels |
2e-19 |
rs67198005 |
1 |
GCST90945024 |
no MR -> candidate analysis |
| Mean platelet thrombocyte volume (UKB data field 30100) |
1e-18 |
rs6702978 |
1 |
GCST90468087 |
no MR -> candidate analysis |
| …and 22 more traits (see JSON) |
|
|
|
|
|
4. Phenome map — where this gene is a genetic locus, vs. where MR exists
Top diseases by Open Targets association (of 743 total). Associations are loci, not causal claims. The causal-status column is a four-state triage per pair: established (curated) = a curated clinical assertion exists (ClinGen/G2P/GEL/Orphanet/ClinVar — any validity level, MR adds little); exploratory rare-variant signal = ExWAS burden evidence without curation — a candidate NEW gene-disease relationship; common-variant locus = GWAS signal, classic pQTL-MR territory; multi-layer = burden+GWAS together, an allelic-series candidate (the strongest causal setup). Burden estimand is carrier-vs-noncarrier, not per-SD MR.
| Disease |
genetic assoc. |
burden (ExWAS) |
causal status |
MR status |
| isolated Dandy-Walker malformation without hydrocephalus |
0.608 |
— |
established (curated) |
no MR -> candidate analysis |
| placental retention |
0.456 |
— |
common-variant locus |
no MR -> candidate analysis |
| Peyronie disease |
0.426 |
— |
common-variant locus |
no MR -> candidate analysis |
| Hydrocephalus |
0.426 |
— |
established (curated) |
no MR -> candidate analysis |
| Hemiparesis |
0.426 |
— |
established (curated) |
no MR -> candidate analysis |
| focal epilepsy |
0.426 |
— |
established (curated) |
no MR -> candidate analysis |
| arthritic joint disease |
0.357 |
— |
common-variant locus |
no MR -> candidate analysis |
| hereditary disease |
0.195 |
— |
established (curated) |
no MR -> candidate analysis |
| Non-progressive cerebellar ataxia with intellectual disability |
0.195 |
— |
established (curated) |
no MR -> candidate analysis |
| cerebellar dysfunction with variable cognitive and behavioral abnormalities |
0.195 |
— |
established (curated) |
no MR -> candidate analysis |
| COVID-19 |
0.128 |
— |
common-variant locus |
no MR -> candidate analysis |
Of the 11 rows above, 11 have no MR estimate in this resource. Across all retrieved diseases for this gene: 0 exploratory rare-variant signal(s), 0 multi-layer (allelic-series candidate) pair(s). Final triage still belongs to a statistical geneticist.
5. Downstream annotation (druggability & safety preview)
| Layer |
Result |
| ChEMBL druggability |
not available — no ChEMBL target (undrugged) |
| gnomAD constraint |
pLI=3.3e-13, LOEUF=0.704 — LoF-tolerant |
| GWAS Catalog |
92 unique SNPs / 184 rows |
| ClinVar |
381 records; 2 pathogenic in sample of 30 |
| PharmGKB/ClinPGx |
no annotations |
phenome — Top 30 of 743 associated diseases by overall score. genetic_association aggregates GWAS common-variant AND rare-variant evidence. These are ASSOCIATIONS (loci), not causal claims.chembl — No ChEMBL target for ‘NID1’.clinvar — Pathogenic count is over the 30 record(s) retrieved, NOT over all 381 ClinVar records for this gene; it is a sample, not a rate.pharmgkb — No PharmGKB/ClinPGx clinical annotations (gene may not be a pharmacogene).gwas_traits — Top 20 of 34 traits by best p-value, aggregated from 53 association rows. These are GWAS ASSOCIATIONS (loci), not causal claims; mapped genes at a locus are not necessarily the effector gene.
Sources
uniprot: https://www.uniprot.org/uniprotkb/P14543 — UniProt release 2026_02 (10-June-2026)mr_outcomes: https://epigraphdb.org/pqtl/ — EpiGraphDB pQTL MR (Zheng et al., Nat Genet 2020) — pre-computed two-sample MR; retrieved, not computed by this agent; EpiGraphDB build 1.0, pQTL dataset v3.0phenome: https://platform.opentargets.org/target/ENSG00000116962/associations — Open Targets data release 26.06gnomad: https://gnomad.broadinstitute.org/gene/NID1 — gnomAD constraint via GraphQL API (reference genome GRCh38)gwas: https://www.ebi.ac.uk/gwas/genes/NID1 — GWAS Catalog REST (live; release not exposed by this endpoint)clinvar: https://www.ncbi.nlm.nih.gov/clinvar/?term=NID1%5Bgene%5D — ClinVar build Build260809-1055.1gwas_traits: https://www.ebi.ac.uk/gwas/genes/NID1 — GWAS Catalog search API (live; release not exposed)
Provenance
- Generated: 2026-08-14T03:58:44 · Tier: A
- Fully mechanical: every cell above is rendered from tool return values. No language model wrote any part of this dossier.
- MR estimates, where present, are retrieved from published work (EpiGraphDB pQTL, Zheng et al. Nat Genet 2020); nothing is computed here.
- Tool errors this run: none